GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
C1_1 - Phorbol estersdiacylglycerol binding domain (C1 domain)
Pfam: PF00130 (v27) Consensus Sequence
Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )
Clan: CL0006
Length: 53
Sequences: 1729
Seq/Len: 32.62
HH_delta: -0.168 (20Jul13)
GREMLIN Results:
Residue pairs sorted by strength in covariance:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

ij Raw Score Scaled Score
39_H42_C0.968473.283
34_C39_H0.685242.323
39_H50_C0.670062.271
1_H14_C0.609442.066
42_C50_C0.561831.905
14_C17_C0.537121.821
8_F37_V0.528951.793
34_C42_C0.524521.778
1_H17_C0.495341.679
17_C31_C0.441111.495
36_L46_V0.421761.430
23_G27_Q0.413311.401
8_F28_G0.410661.392
14_C31_C0.407271.381
40_K43_L0.403341.367
19_K22_W0.401091.360
13_Y20_F0.386031.309
2_H32_S0.365381.239
2_H33_W0.353821.199
29_Y43_L0.346351.174
4_V32_S0.333511.131
1_H31_C0.305851.037
5_P40_K0.304021.031
16_V36_L0.299091.014
30_R37_V0.294460.998
3_F38_C0.291730.989
23_G28_G0.273710.928
15_D22_W0.268370.910
34_C50_C0.261330.886
8_F12_T0.251240.852
32_S35_G0.243890.827
10_K35_G0.239590.812
17_C34_C0.239390.812
23_G31_C0.239390.812
3_F22_W0.237540.805
12_T41_K0.236470.802
12_T37_V0.235630.799
15_D36_L0.234060.793
37_V47_P0.233090.790
15_D18_G0.230170.780
4_V49_S0.227940.773
45_K48_P0.226620.768
4_V8_F0.226330.767
10_K20_F0.222770.755
13_Y18_G0.219710.745
6_T28_G0.218940.742
16_V20_F0.218230.740
38_C42_C0.21640.734
19_K44_S0.215970.732
6_T10_K0.213610.724
6_T30_R0.212210.719
9_S26_K0.211590.717
5_P32_S0.211460.717
17_C42_C0.210790.715
15_D46_V0.210230.713
14_C39_H0.207250.703
7_T10_K0.204280.693
25_G44_S0.20380.691
8_F21_I0.203140.689
36_L51_G0.200910.681
46_V50_C0.197620.670
1_H16_V0.196550.666
16_V45_K0.196040.665
5_P25_G0.195370.662
29_Y38_C0.194860.661
3_F40_K0.19350.656
21_I24_L0.193060.654
4_V35_G0.192590.653
10_K45_K0.191410.649
13_Y19_K0.189780.643
9_S45_K0.189230.641
9_S28_G0.188780.640
25_G29_Y0.187690.636
16_V46_V0.185910.630
16_V41_K0.185590.629
5_P26_K0.185190.628
3_F17_C0.185080.627
Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.
HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits:

Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)
PDB Cov Prob HH_delta
3pfqA198.9-0.168
2enzA198.8-0.133
2eliA198.7-0.115
2ennA198.7-0.112
2rowA198.7-0.101
2yuuA198.7-0.101
1y8fA198.7-0.098
3uejA198.7-0.097
2db6A198.6-0.084
3pfqA198.6-0.081

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